ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacattatgtactagtatatgttattactgtcttgttctaaacttgcttggagatatatcaaaacatttaacgacagcattgaaagttgggatact...

Basic information

species	Zea mays
transcript	GRMZM2G150867_T02
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G150867_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g31000.1 (Oryza sativa), 5'ss of exon 5

CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacattatgtactagtatatgttattactgtcttgttctaaactt-gcttggagatatatcaaaacat-ttaacgacagcattgaaagttgggatact
||||||||||| || || || ||||||||||| |||||||||||||| || |||||  |||||||||||||||| ||||||||||||||||| ||||||||| ||    | |  |    |  |  | |||| ||| |    |||  ||| |  |   | |   |  ||   | ||  | | | ||||           |   
CCACAACTTCTATTGTACCCAAATCCTTCTGACCCATTAAATGGAGAGGCTGCTGCACTGATGATGCGTGATCGTCCTGCTTATGAACAAAAAGTGAAAGgtgatgtggtttaaagccattgaactaattattgtttctgcctagtcttagactattgtttggtttaactgtcttgtccataacattttgccacaaattc--

upper sequence: GRMZM2G150867_T03 (Zea mays), 5'ss of exon 4
lower sequence: AT5G41340.1 (Arabidopsis thaliana), 5'ss of exon 5

CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacattatgtactagtatatgttattac-tgtcttgttctaaacttgcttggagatatatcaaaacatttaacgacagcattgaaagttgggatact
|| || |||||  | ||||| || || || |||||||| |||||||| || |||||||| |||||||||||||| ||||||||||| |||   || ||||||||  |       | |   || |      |  | ||  | |    ||     ||    | | |       |||           |  | || | | ||| 
CCTCAGCTTCTTCTGTATCCAAACCCATCAGATCCATTGAATGGAGAAGCTGCTGCGTTAATGATGCGTGATCGTCCTGCTTATGAGCAACGAGTTAAAGgtaagtcgactcagattctcatgttaagagatatatcaagattctgacaaatctgttagtttctttctctttttcttttatttgcttgatgt-gaggtaca

upper sequence: GRMZM2G150867_T03 (Zea mays), 5'ss of exon 4
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 5'ss of exon 5

CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacattatgtactagtatatgttattactgtcttgttctaaacttgcttggagatatatcaaaacatttaacgacagcattgaaagttgggatact
|| ||||||||  | ||||| ||||| || |||||||| ||||| || |||||||| ||||||||||||||||| ||| | |||||||| |  || |||||| | | |||  ||  |  | ||  || ||  |  | |    ||   |  |||   | |   |   |                                 
CCGCAACTTCTTCTGTATCCGAATCCGTCAGATCCATTGAATGGTGAAGCAGCTGCATTGATGATGCGTGATCGTCCTACCTATGAACAGAGAGTTAAAGgttagatattgagt--tgat-tagattcttgttaccctacattatcttatcttcttgctcggtttcag--------------------------------

upper sequence: GRMZM2G150867_T03 (Zea mays), 5'ss of exon 4
lower sequence: Vv15s0046g02280.t01 (Vitis vinifera), 5'ss of exon 5

CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacattatgtactagtatatgttattactgtcttgtt---ctaaacttgcttggagatatatcaaaacatttaacgacagcat-tgaaagttgggatact
|| |||||||| || ||||| || || || ||||||||||||||||| || || ||  | ||||||||||| ||  |||||||||||||||  || ||||||| |  || |||| | |   | |    |  |  || || |   ||  |  |||       | |    ||   | || | ||  | | |||  | |   |||  
CCGCAACTTCTTTTGTATCCCAACCCATCAGATCCATTAAATGGAGAGGCTGCAGCTCTAATGATGCGTGACCGAACTGCTTATGAACAAAGAGTTAAAGgtattg-atcatgttcaacattctaaattcccaatcatgcttgccttgaaatgccaatgcctttggttaag-gtctaccaacttcctatgattgctccaata--

upper sequence: GRMZM2G150867_T03 (Zea mays), 5'ss of exon 4
lower sequence: Vv02s0025g00070.t01 (Vitis vinifera), 5'ss of exon 5

CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacattatgtactagtatatgttattactgtcttgttctaaacttgcttggagatatatcaaaacatttaacgacagcattgaaagttgggatact----
|| ||||||||  | || || || || || |||||||| |||||||| || || ||  |||||||||| ||||| ||||||||||||||||  ||||||||||  |  |  |   | ||  | |    |  |  |  |    ||   || ||   |        | | ||  ||| |       |  |||| |   | |     
CCTCAACTTCTTCTCTACCCCAACCCATCAGATCCATTGAATGGAGAGGCTGCAGCCCTGATGATGCGAGATCGGCCTGCTTATGAACAAAGAGTGAAAGgtagca-gtccttctcaagcttcta--gtccccatagtaca-tatgtttactcataaggtggcaagatcaaataatggtgaatcttcaagtggtacttcattca

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|6056913|gb|AW091318.1|AW091318

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|211541025|gb|FL000900.1|FL000900

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCT-ATGAACAAAAGGTGAAA-                         AGTACTGTCAAAAATACGC-AAACCAGAGAATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|26559982|gb|CA832217.1|CA832217

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAAC
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAAC

EST: gi|15499388|gb|BI595901.1|BI595901

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTCAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|87157692|gb|DY402481.1|DY402481

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|67018577|gb|CO447326.1|CO447326

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|166537158|gb|EG303387.1|EG303387

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAA-GGTGAAAG                         AGTACTGTGAAAA
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAA

EST: gi|12971358|gb|BG267442.1|BG267442

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|211427762|gb|FL233520.1|FL233520

EST:     TGCTTATGAACAAAAGGTGAAAG                         AGTACTGTCAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: TGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|28984207|gb|BQ538996.2|BQ538996

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|23199807|gb|BU582372.1|BU582372

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|15427006|gb|BI542828.1|BI542828

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTCAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|5439433|gb|AI820354.1|AI820354

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|211427761|gb|FL233519.1|FL233519

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|211541018|gb|FL000893.1|FL000893

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|37394410|gb|CF634479.1|CF634479

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|5455873|gb|AI833563.1|AI833563

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|5525634|gb|AI861527.1|AI861527

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|32911041|gb|CF015853.1|CF015853

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTCAAAAATACGCCAAACCAGAGGATGCTGGGGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

EST: gi|166603465|gb|EG175322.1|EG175322

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGC
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGC

EST: gi|211096443|gb|FL454804.1|FL454804

EST:     AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAG                         AGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG
genomic: AGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAG

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 270

CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacatt ... gtttttttagAGTACTGTGAAAAATACGCCAAACCAGAGGATGCTGGTGTCAGCCCAGAAGACGAGTCCAGTGACGAAGAGCTGAGTGAAGAGGAAAATGACTCGGGTGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 249

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 179

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 375

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns

        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGATCGCCCTGCTTATGAACAAAAGGTGAAAGgtaatacattatgtactagtatatgttattactgtcttgttctaaacttgcttggagatatatcaaaacatttaacgacagcattgaaagttgggatact

- - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC